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Gene Review

RPB3  -  DNA-directed RNA polymerase II core...

Saccharomyces cerevisiae S288c

Synonyms: B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit 3, RNA polymerase II subunit B3, ...
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High impact information on RPB3

  • Sequence alignments, combined with secondary-structure predictions, support proposals that a heterodimer of the eukaryotic RNAP subunits related to Saccharomyces cerevisiae Rpb3 and Rpb11 plays the role of the alphaNTD dimer in prokaryotic RNAP [1].
  • Although multiple functions have been assigned to the three largest subunits, RPB1, RPB2, and RPB3, the functions of the remaining smaller subunits are unknown [2].
  • These data indicate that RPB2 and RPB3 form a complex that subsequently interacts with RPB1 during the assembly of RNA polymerase II [3].
  • Finally, the RPB3 protein is similar in sequence and length to RPC5, a subunit common to RNA polymerases I and III, suggesting that these subunits may play similar roles in RNA polymerases I, II, and III [4].
  • RPB3 was found to be an essential single-copy gene that is tightly linked to HIS6 on chromosome IX [4].

Biological context of RPB3


Anatomical context of RPB3

  • Due to the failure of skeletal muscle cells to differentiate when exposed to dox, we hypothesized that RPB3 is involved in muscle differentiation [8].

Associations of RPB3 with chemical compounds

  • Glycerol gradient fractionation of extracts of cells pulse-labeled for various times revealed that a subcomplex of RPB2 and RPB3 appears soon after subunit synthesis and can be chased into fully assembled enzyme [3].
  • Determination of the precise orientation of the RNAPII in the holoenzyme indicates that Mediator contacts are centered on the RNAPII Rpb3/Rpb11 heterodimer, the eukaryotic homolog of the alpha(2) homodimer involved in transcription regulation in prokaryotes [9].

Other interactions of RPB3

  • We have sequenced two different cDNAs (AtRPB36a and AtRPB36b), the two corresponding genes from Arabidopsis thaliana that are homologs of yeast RPB3, and an Arabidopsis cDNA (AtRPB13.6) that is a homolog of yeast RPB11 [10].
  • Under certain circumstances, RPB3, RPB4, and RPB7 were cross-linked [11].
  • The existence of Rpb5-Rpb3 contact was supported by detection of complexes formed between these two proteins synthesized in vitro using protein-immobilized beads [12].


  1. Structure of the Escherichia coli RNA polymerase alpha subunit amino-terminal domain. Zhang, G., Darst, S.A. Science (1998) [Pubmed]
  2. RNA polymerase II subunit RPB9 is required for accurate start site selection. Hull, M.W., McKune, K., Woychik, N.A. Genes Dev. (1995) [Pubmed]
  3. Mutations in the three largest subunits of yeast RNA polymerase II that affect enzyme assembly. Kolodziej, P.A., Young, R.A. Mol. Cell. Biol. (1991) [Pubmed]
  4. RNA polymerase II subunit RPB3 is an essential component of the mRNA transcription apparatus. Kolodziej, P., Young, R.A. Mol. Cell. Biol. (1989) [Pubmed]
  5. RNA polymerase II subunit composition, stoichiometry, and phosphorylation. Kolodziej, P.A., Woychik, N., Liao, S.M., Young, R.A. Mol. Cell. Biol. (1990) [Pubmed]
  6. Distinct regions of RPB11 are required for heterodimerization with RPB3 in human and yeast RNA polymerase II. Benga, W.J., Grandemange, S., Shpakovski, G.V., Shematorova, E.K., Kedinger, C., Vigneron, M. Nucleic Acids Res. (2005) [Pubmed]
  7. Functional conservation of RNA polymerase II in fission and budding yeasts. Shpakovski, G.V., Gadal, O., Labarre-Mariotte, S., Lebedenko, E.N., Miklos, I., Sakurai, H., Proshkin, S.A., Van Mullem, V., Ishihama, A., Thuriaux, P. J. Mol. Biol. (2000) [Pubmed]
  8. The alpha-like RNA polymerase II core subunit 3 (RPB3) is involved in tissue-specific transcription and muscle differentiation via interaction with the myogenic factor myogenin. Corbi, N., Di Padova, M., De Angelis, R., Bruno, T., Libri, V., Iezzi, S., Floridi, A., Fanciulli, M., Passananti, C. FASEB J. (2002) [Pubmed]
  9. Structure of the yeast RNA polymerase II holoenzyme: Mediator conformation and polymerase interaction. Davis, J.A., Takagi, Y., Kornberg, R.D., Asturias, F.A. Mol. Cell (2002) [Pubmed]
  10. Association between 36- and 13.6-kDa alpha-like subunits of Arabidopsis thaliana RNA polymerase II. Ulmasov, T., Larkin, R.M., Guilfoyle, T.J. J. Biol. Chem. (1996) [Pubmed]
  11. Topology of yeast RNA polymerase II subunits in transcription elongation complexes studied by photoaffinity cross-linking. Wooddell, C.I., Burgess, R.R. Biochemistry (2000) [Pubmed]
  12. Molecular assembly of RNA polymerase II from the fission yeast Schizosaccharomyces pombe: subunit-subunit contact network involving Rpb5. Miyao, T., Yasui, K., Sakurai, H., Yamagishi, M., Ishihama, A. Genes Cells (1996) [Pubmed]
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